Pokémon: Alternate Shadows

After a mysterious creature attacks the Pokémon Research HQ and sends Michael Ryuuto to an unknown location, the young trainer eventually wakes up after ten years in stasis to start a new journey across time and space to stop Cipher once again. Now partnered with a Sylveon, Michael must go and stop Cipher, no matter the cost. But what is this NXD-000? T since I don't trust myself.